The other day I want to upgrade NodeJS with homebrew. It complains about
pkg-config linking. I tried to link it, remove it, reinstall. All is
fine. I can see pkg-config in my path. But it keeps complaining about
pkg-config missing.
So here is how I fix it.
I run brew doctor and got this result.
Please note that these warnings are just used to help the Homebrew maintainers
with debugging if you file an issue. If everything you use Homebrew for is
working fine: please don't worry and just ignore them. Thanks!
Warning: Your XQuartz (2.7.7) is outdated.
Please install XQuartz 2.7.9 (or delete the current version).
XQuartz can be updated using Homebrew-Cask by running
brew cask reinstall xquartz
Warning: Unbrewed dylibs were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected dylibs:
/usr/local/lib/libarena-4e7c5e5c.dylib
/usr/local/lib/libflate-4e7c5e5c.dylib
/usr/local/lib/libfmt_macros-4e7c5e5c.dylib
/usr/local/lib/libgetopts-4e7c5e5c.dylib
/usr/local/lib/libgraphviz-4e7c5e5c.dylib
/usr/local/lib/liblog-4e7c5e5c.dylib
/usr/local/lib/librbml-4e7c5e5c.dylib
/usr/local/lib/librustc-4e7c5e5c.dylib
/usr/local/lib/librustc_back-4e7c5e5c.dylib
/usr/local/lib/librustc_borrowck-4e7c5e5c.dylib
/usr/local/lib/librustc_driver-4e7c5e5c.dylib
/usr/local/lib/librustc_lint-4e7c5e5c.dylib
/usr/local/lib/librustc_llvm-4e7c5e5c.dylib
/usr/local/lib/librustc_privacy-4e7c5e5c.dylib
/usr/local/lib/librustc_resolve-4e7c5e5c.dylib
/usr/local/lib/librustc_trans-4e7c5e5c.dylib
/usr/local/lib/librustc_typeck-4e7c5e5c.dylib
/usr/local/lib/librustdoc-4e7c5e5c.dylib
/usr/local/lib/libserialize-4e7c5e5c.dylib
/usr/local/lib/libstd-4e7c5e5c.dylib
/usr/local/lib/libsyntax-4e7c5e5c.dylib
/usr/local/lib/libterm-4e7c5e5c.dylib
/usr/local/lib/libtest-4e7c5e5c.dylib
Warning: Unbrewed header files were found in /usr/local/include.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected header files:
/usr/local/include/kore/http.h
/usr/local/include/kore/kore.h
/usr/local/include/kore/pgsql.h
/usr/local/include/kore/spdy.h
/usr/local/include/kore/tasks.h
/usr/local/include/ublio.h
Warning: You have unlinked kegs in your Cellar
Leaving kegs unlinked can lead to build-trouble and cause brews that depend on
those kegs to fail to run properly once built. Run `brew link` on these:
ack
apple-gcc42
atk
atkmm
autoconf
automake
awscli
bazaar
bdw-gc
boost
cairo
cairomm
carthage
chicken
cmake
collectd
coreutils
cscope
ctags
czmq
dirmngr
dnsmasq
drafter
drone
dropbear
dynamodb-local
elasticsearch
elixir
erlang
expect
fish
fontconfig
fontforge
freetype
fswatch
gcc48
gd
gdbm
gdk-pixbuf
geoip
ghostscript
git
git-crypt
git-flow
git-radar
glib
glibmm
gmp
gnupg
gnupg2
gnuplot
gnutls
go
gobject-introspection
gpg-agent
gradle
gsl
gtk+
gtkmm
haproxy
harfbuzz
hicolor-icon-theme
htop-osx
imagemagick
influxdb
inkscape
iperf
iperf3
jbig2dec
jpeg
jq
json-c
kyoto-cabinet
lastpass-cli
leveldb
libassuan
libconfig
libcroco
libevent
libgcrypt
libgpg-error
libksba
libmagic
libpng
librsvg
libsigc++
libtasn1
libtiff
libtool
libusb
libusb-compat
libyaml
libyubikey
little-cms
little-cms2
lua
luajit
luarocks
lz4
macvim
mariadb
maven
mcrypt
memcached
mercurial
mhash
mobile-shell
mongodb
multitail
mysql56
neovim
netcat
nettle
nginx
nmap
nsq
oniguruma
packer
pango
pangomm
pass
pcre
pcre2
percona-toolkit
perl
phantomjs
php70
php70-mcrypt
pinentry
pixman
pkg-config
popt
postgresql
ppl011
protobuf
pth
putty
pwgen
python
qt
rabbitmq
reattach-to-user-namespace
redis
rethinkdb
rocksdb
ruby
s3cmd
siege
snappy
sphinx
stow
strongswan
sup
supervisor
telegraf
the_silver_searcher
tmate
tmux
tree
tsung
unixodbc
unrar
vim
vnstat
w3m
watch
watchman
wget
wireshark
wrk
wxmac
xz
ykpers
zeromq
Warning: Some directories in your path end in a slash.
Directories in your path should not end in a slash. This can break other
doctor checks. The following directories should be edited:
/Users/kureikain/go/bin/
/Users/kureikain/Applications/love.app/Contents/MacOS/
/Users/kureikain/Sites/Homestead/
/Users/kureikain/Sites/devops-scripts/aws/
Warning: Your Xcode (8.0) is outdated.
Please update to Xcode 8.2 (or delete it).
Xcode can be updated from the App Store.
Warning: Broken symlinks were found. Remove them with `brew prune`:
/usr/local/bin/jsplora
/usr/local/share/man/man1/npm-README.1
/usr/local/share/man/man1/npm-access.1
/usr/local/share/man/man1/npm-adduser.1
/usr/local/share/man/man1/npm-bin.1
/usr/local/share/man/man1/npm-bugs.1
/usr/local/share/man/man1/npm-build.1
/usr/local/share/man/man1/npm-bundle.1
/usr/local/share/man/man1/npm-cache.1
/usr/local/share/man/man1/npm-completion.1
/usr/local/share/man/man1/npm-config.1
/usr/local/share/man/man1/npm-dedupe.1
/usr/local/share/man/man1/npm-deprecate.1
/usr/local/share/man/man1/npm-dist-tag.1
/usr/local/share/man/man1/npm-docs.1
/usr/local/share/man/man1/npm-edit.1
/usr/local/share/man/man1/npm-explore.1
/usr/local/share/man/man1/npm-help-search.1
/usr/local/share/man/man1/npm-help.1
/usr/local/share/man/man1/npm-init.1
/usr/local/share/man/man1/npm-install-test.1
/usr/local/share/man/man1/npm-install.1
/usr/local/share/man/man1/npm-link.1
/usr/local/share/man/man1/npm-logout.1
/usr/local/share/man/man1/npm-ls.1
/usr/local/share/man/man1/npm-outdated.1
/usr/local/share/man/man1/npm-owner.1
/usr/local/share/man/man1/npm-pack.1
/usr/local/share/man/man1/npm-ping.1
/usr/local/share/man/man1/npm-prefix.1
/usr/local/share/man/man1/npm-prune.1
/usr/local/share/man/man1/npm-publish.1
/usr/local/share/man/man1/npm-rebuild.1
/usr/local/share/man/man1/npm-repo.1
/usr/local/share/man/man1/npm-restart.1
/usr/local/share/man/man1/npm-root.1
/usr/local/share/man/man1/npm-run-script.1
/usr/local/share/man/man1/npm-search.1
/usr/local/share/man/man1/npm-shrinkwrap.1
/usr/local/share/man/man1/npm-star.1
/usr/local/share/man/man1/npm-stars.1
/usr/local/share/man/man1/npm-start.1
/usr/local/share/man/man1/npm-stop.1
/usr/local/share/man/man1/npm-tag.1
/usr/local/share/man/man1/npm-team.1
/usr/local/share/man/man1/npm-test.1
/usr/local/share/man/man1/npm-uninstall.1
/usr/local/share/man/man1/npm-unpublish.1
/usr/local/share/man/man1/npm-update.1
/usr/local/share/man/man1/npm-version.1
/usr/local/share/man/man1/npm-view.1
/usr/local/share/man/man1/npm-whoami.1
/usr/local/share/man/man1/npm.1
/usr/local/share/man/man5/npm-folders.5
/usr/local/share/man/man5/npm-global.5
/usr/local/share/man/man5/npm-json.5
/usr/local/share/man/man5/npmrc.5
/usr/local/share/man/man5/package.json.5
/usr/local/share/man/man7/npm-coding-style.7
/usr/local/share/man/man7/npm-config.7
/usr/local/share/man/man7/npm-developers.7
/usr/local/share/man/man7/npm-disputes.7
/usr/local/share/man/man7/npm-index.7
/usr/local/share/man/man7/npm-orgs.7
/usr/local/share/man/man7/npm-registry.7
/usr/local/share/man/man7/npm-scope.7
/usr/local/share/man/man7/npm-scripts.7
/usr/local/var/homebrew/linked/hugo
/usr/local/var/homebrew/linked/node
/usr/local/var/homebrew/linked/php56-mcrypt
Warning: Some installed formula are missing dependencies.
You should `brew install` the missing dependencies:
brew install dbus gflags gperftools libssh libtermkey libuv libvterm msgpack net-snmp qt5 shared-mime-info unibilium webp
Run `brew missing` for more details.
So, first I save them into a file:
for f in `cat a`; do echo "remove $f"; brew link $f; done
I then install package:
brew install dbus gflags gperftools libssh libtermkey libuv libvterm msgpack net-snmp qt5 shared-mime-info unibilium webp
But still failing. It seems I’m in a horrible broken state.
At this point, I try to cd into /usr/local/ and realize I don’t have a
.git folder here. I remeber some change about homebrew the other day.
I went to their github repo and did this:
cd "$(brew --repo)" && git fetch && git reset --hard origin/master &&
brew update
The next thing is it complains about this
Error: No such file or directory - /Volumes/nyanko/brew/Cellar
This is what my folder looks like:
drwxr-xr-x 195 kureikain admin 6630 Dec 21 10:18 Cellar
drwxr-xr-x 22 kureikain admin 748 Dec 2 20:59 Frameworks
drwxr-xr-x 17 kureikain admin 578 Dec 21 10:21 Homebrew
drwxr-xr-x 6 root wheel 204 Jun 28 05:18 MacGPG2
drwxr-xr-x 6 root admin 204 Dec 22 2015 aws
drwxr-xr-x 1096 kureikain admin 37264 Dec 21 10:19 bin
drwxr-xr-x 48 kureikain admin 1632 Dec 21 10:07 etc
drwxr-xr-x 275 kureikain admin 9350 Dec 21 10:07 include
drwxr-xr-x 699 kureikain admin 23766 Dec 21 10:07 lib
drwxr-xr-x 196 kureikain admin 6664 Dec 21 10:19 opt
drwxr-xr-x 20 kureikain admin 680 Dec 21 10:05 sbin
drwxr-xr-x 69 kureikain admin 2346 Dec 21 10:19 share
drwxr-xr-x 3 kureikain admin 102 May 24 2015 texlive
lrwxr-xr-x 1 kureikain admin 24 Sep 2 2015 var -> /Volumes/nyanko/brew/var
I have so much data on our local mysql, mongodb, elasticsearch and
I have to put them into that folder and do a symlink, which turns out a
bad idea because homebrew seems not play nice with symlink.
I unlink and move everything back and stuff started to work again. After
thing started to work, I go into my /Volumes/nyanko/brew/var and
symlink everything back like this:
lrwxr-xr-x 1 kureikain staff 17 Jan 5 09:36 Cellar -> /usr/local/Cellar
lrwxr-xr-x 1 kureikain staff 21 Dec 21 11:47 Frameworks -> /usr/local/Frameworks
lrwxr-xr-x 1 kureikain staff 19 Dec 21 11:47 Homebrew -> /usr/local/Homebrew
lrwxr-xr-x 1 kureikain staff 18 Dec 21 11:47 MacGPG2 -> /usr/local/MacGPG2
lrwxr-xr-x 1 kureikain staff 14 Dec 21 11:47 aws -> /usr/local/aws
lrwxr-xr-x 1 kureikain staff 14 Dec 21 11:47 bin -> /usr/local/bin
lrwxr-xr-x 1 kureikain staff 14 Dec 21 11:47 etc -> /usr/local/etc
lrwxr-xr-x 1 kureikain staff 18 Dec 21 11:47 include -> /usr/local/include
lrwxr-xr-x 1 kureikain staff 14 Dec 21 11:47 lib -> /usr/local/lib
lrwxr-xr-x 1 kureikain staff 14 Dec 21 11:47 opt -> /usr/local/opt
lrwxr-xr-x 1 kureikain staff 15 Dec 21 11:47 sbin -> /usr/local/sbin
lrwxr-xr-x 1 kureikain staff 16 Dec 21 11:47 share -> /usr/local/share
lrwxr-xr-x 1 kureikain staff 18 Dec 21 11:47 texlive -> /usr/local/texlive
drwxr-xr-x 15 kureikain staff 544 Dec 21 10:37 var
I feel like homebrew is too much trouble to use. When it’s work, it works great but when it doesn’t, it’s horrible. I’m not sure if I can do something better but I want to try out an idea that I have in mind. Stay tune.